lncRNA-Activated by TBGF-β-induced transcriptional changes and binding targets in hepatocellular carcinoma cells
Non-coding RNA profiling · human · 14 samples
- What it is
- Non-coding RNA profilingLevels of RNAs that do not code for proteins, such as miRNA or lncRNA.
- Organism
- Homo sapiens (human)
- Topic
- Hepatocellular carcinomaThis series is part of our curated briefing on it.
- Samples
- 14 samples: 3 × TGF-β_untreated vs 3 × TGF-β_treated vs 3 × SMMC-7721_lncRNA-ATB_overexpression vs 3 × SMMC-7721_controlGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed expression table (series matrix) and the array files, from NCBI.
Direct links to NCBI, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need.
Whole study · RAW.tar
Everything the authors deposited as one archive (GSE54800_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.
Also filed as BioProject PRJNA237662. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 6 samples read as cases, 3 as controls.
How we read this: 4 replicated groups read from 14 sample titles; they account for 12 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM1324152 TGF-β_untreated_rep1 TGF-β_untreated
- GSM1324153 TGF-β_untreated_rep2 TGF-β_untreated
- GSM1324154 TGF-β_untreated_rep3 TGF-β_untreated
- GSM1324155 TGF-β_treated_rep1 TGF-β_treated
- GSM1324156 TGF-β_treated_rep2 TGF-β_treated
- GSM1324157 TGF-β_treated_rep3 TGF-β_treated
- GSM1324158 SMMC-7721_lncRNA-ATB_overexpression_rep1 SMMC-7721_lncRNA-ATB_ov…
- GSM1324159 SMMC-7721_lncRNA-ATB_overexpression_rep2 SMMC-7721_lncRNA-ATB_ov…
- GSM1324160 SMMC-7721_lncRNA-ATB_overexpression_rep3 SMMC-7721_lncRNA-ATB_ov…
- GSM1324161 SMMC-7721_control_rep1 SMMC-7721_control
- GSM1324162 SMMC-7721_control_rep2 SMMC-7721_control
- GSM1324163 SMMC-7721_control_rep3 SMMC-7721_control
- GSM1324164 AntiGFP_RIPSeq
- GSM1324165 IgG_RIPSeq
- GSE14520 Gene expression data of human hepatocellular carcinoma (HCC) 488 samples same disease briefing · shares hepatocellular
- GSE10143 Gene Expression in Fixed Tissues and Outcome in Hepatocellular Carcinoma 387 samples same disease briefing · shares hepatocellular
- GSE107170 Molecular Signature of Hepatitis D Virus-Associated Hepatocellular Carcinoma 307 samples same disease briefing · shares hepatocellular
- GSE104580 Using a novel gene signature for predicting the efficacy of the transarterial chemoembolization in patients with hepatocellular carcinoma. 147 samples same disease briefing · shares hepatocellular
- GSE109211 Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial 140 samples same disease briefing · shares hepatocellular
- GSE10186 Integrative Transcriptome Analysis Reveals Common Molecular Subtypes of Human Hepatocellular Carcinoma 118 samples same disease briefing · shares hepatocellular
- GSE105130 Comprehensive analysis of Transcriptome Profiles in Hepatocellular Carcinoma patients 52 samples same disease briefing · shares hepatocellular
- GSE140228 Landscape and Dynamics of Single Immune Cells in Hepatocellular Carcinoma 41 samples same disease briefing · shares hepatocellular
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.